nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > Struct Template Reference

Detailed description

template< typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>
struct nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >

A class to represent a forward packed stream of symbols, where the size of the symbol is specified at compile-time as a template parameter. The sequence is packed on top of an underlying stream of words, whose type can also be specified at compile-time in order to allow for different memory access patterns. This class is a ForwardIterator, and is useful when one needs to just stream sequentially through a packed stream; in this case, in fact, the symbols are unpacked incrementally, reducing the amount of logic operations and memory transactions.

Template Parameters

InputStream	the underlying stream of words used to hold the packed stream (e.g. uint32, uint4)
Symbol	the unpacked symbol type (e.g. uint8)
SYMBOL_SIZE_T	the number of bits needed for each symbol
BIG_ENDIAN_T	the "endianness" of the words: if true, symbols will be packed from right to left within each word
IndexType	the type of integer used to address the stream (e.g. uint32, uint64)

Definition at line 99 of file packedstream.h.

#include <packedstream.h>

Public Types
typedef ForwardPackedStream < InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >	This
typedef unsigned_type < IndexType >::type	index_type
typedef signed_type< IndexType > ::type	sindex_type
typedef std::iterator_traits < InputStream >::value_type	storage_type
typedef InputStream	stream_type
typedef InputStream	storage_iterator
typedef Symbol	symbol_type
typedef PackedStreamRef< This >	reference
typedef Symbol	const_reference
typedef reference *	pointer
typedef std::iterator_traits < InputStream > ::iterator_category	iterator_category
typedef symbol_type	value_type
typedef sindex_type	difference_type
typedef sindex_type	distance_type
typedef This	iterator
typedef This	const_iterator
typedef This	forward_iterator

Public Methods
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	ForwardPackedStream ()
template<typename UInputStream >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	ForwardPackedStream (const UInputStream stream, const index_type index=0)
template<typename UInputStream , typename USymbol >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	ForwardPackedStream (const ForwardPackedStream< UInputStream, USymbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &other)
template<typename UInputStream , typename USymbol >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE	ForwardPackedStream (const PackedStream< UInputStream, USymbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &other)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE reference	operator* () const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE Symbol	get () const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE iterator	begin () const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE InputStream	stream () const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE index_type	index () const
template<typename UInputStream , typename USymbol >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream &	operator= (const ForwardPackedStream< UInputStream, USymbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &other)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream &	operator++ ()
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream	operator++ (int dummy)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream &	operator-- ()
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream	operator-- (int dummy)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream &	operator+= (const sindex_type distance)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream &	operator-= (const sindex_type distance)
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream	operator+ (const sindex_type distance) const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream	operator- (const sindex_type distance) const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE sindex_type	operator- (const ForwardPackedStream it) const
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void	rebase ()

Public Members
InputStream	m_stream
index_type	m_index
storage_type	m_word
uint32	m_word_index
uint32	m_word_offset

Static Public Members
static const uint32	SYMBOL_SIZE = SYMBOL_SIZE_T
static const uint32	SYMBOL_COUNT = 1u << SYMBOL_SIZE
static const uint32	SYMBOL_MASK = SYMBOL_COUNT - 1u
static const uint32	BIG_ENDIAN = BIG_ENDIAN_T
static const uint32	ALPHABET_SIZE = SYMBOL_COUNT
static const uint32	WORD_SIZE = uint32( sizeof(storage_type) )
static const uint32	SYMBOLS_PER_WORD = (8u * WORD_SIZE) / SYMBOL_SIZE
static const uint32	VECTOR_WIDTH = SYMBOLS_PER_WORD

Related Functions
(Note that these are not member functions.)
template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE bool	operator< (const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it1, const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it2)
template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE bool	operator> (const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it1, const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it2)
template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE bool	operator== (const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it1, const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it2)
template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >
NVBIO_FORCEINLINE NVBIO_HOST_DEVICE bool	operator!= (const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it1, const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &it2)

Member Typedef Documentation

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef This nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::const_iterator

Definition at line 447 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef Symbol nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::const_reference

Definition at line 440 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef sindex_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::difference_type

Definition at line 444 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef sindex_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::distance_type

Definition at line 445 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef This nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::forward_iterator

Definition at line 448 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef unsigned_type<IndexType>::type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::index_type

Definition at line 428 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef This nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::iterator

Definition at line 446 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef std::iterator_traits<InputStream>::iterator_category nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::iterator_category

Definition at line 442 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef reference* nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::pointer

Definition at line 441 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef PackedStreamRef<This> nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::reference

Definition at line 439 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef signed_type<IndexType>::type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::sindex_type

Definition at line 429 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef InputStream nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::storage_iterator

Definition at line 437 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef std::iterator_traits<InputStream>::value_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::storage_type

Definition at line 430 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef InputStream nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::stream_type

Definition at line 436 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef Symbol nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::symbol_type

Definition at line 438 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef ForwardPackedStream<InputStream,Symbol,SYMBOL_SIZE_T, BIG_ENDIAN_T,IndexType> nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::This

Definition at line 420 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

typedef symbol_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::value_type

Definition at line 443 of file packedstream.h.

Constructor & Destructor Documentation

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::ForwardPackedStream ( )

inline

empty constructor

Definition at line 452 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

template<typename UInputStream >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::ForwardPackedStream ( const UInputStream  stream, const index_type  index = 0  )

inlineexplicit

constructor

Definition at line 457 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

template<typename UInputStream , typename USymbol >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::ForwardPackedStream ( const ForwardPackedStream< UInputStream, USymbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &  other)

inline

constructor

Definition at line 466 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

template<typename UInputStream , typename USymbol >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::ForwardPackedStream ( const PackedStream< UInputStream, USymbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &  other)

inline

constructor

Definition at line 472 of file packedstream.h.

Member Function Documentation

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE iterator nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::begin ( void  ) const

inline

return begin iterator

Definition at line 488 of file packedstream.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE Symbol nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::get

(

)

const

get the current symbol

Definition at line 944 of file packedstream_inl.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE index_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::index ( ) const

inline

return the offset this iterator refers to

Definition at line 498 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE reference nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator* ( ) const

inline

dereference operator

Definition at line 480 of file packedstream.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator+

(

const sindex_type

distance)

const

add offset

Definition at line 1034 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > & nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator++

(

)

pre-increment operator

Definition at line 963 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator++

(

int

dummy)

post-increment operator

Definition at line 974 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > & nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator+=

(

const sindex_type

distance)

add offset

Definition at line 1010 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator-

(

const sindex_type

distance)

const

subtract offset

Definition at line 1044 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::sindex_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator-

(

const ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >

it)

const

difference

Definition at line 1054 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > & nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator--

(

)

pre-decrement operator

Definition at line 986 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator--

(

int

dummy)

post-decrement operator

Definition at line 997 of file packedstream_inl.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > & nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator-=

(

const sindex_type

distance)

subtract offset

Definition at line 1022 of file packedstream_inl.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

template<typename UInputStream , typename USymbol >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE ForwardPackedStream& nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::operator= ( const ForwardPackedStream< UInputStream, USymbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType > &  other)

inline

assignment operator

Definition at line 504 of file packedstream.h.

template<typename InputStream , typename Symbol , uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType >

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE void nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::rebase

(

void

)

rebase the iterator at the current location

Definition at line 953 of file packedstream_inl.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

NVBIO_FORCEINLINE NVBIO_HOST_DEVICE InputStream nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::stream ( ) const

inline

return the base stream

Definition at line 493 of file packedstream.h.

Member Data Documentation

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::ALPHABET_SIZE = SYMBOL_COUNT

static

Definition at line 426 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::BIG_ENDIAN = BIG_ENDIAN_T

static

Definition at line 425 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

index_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::m_index

Definition at line 556 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

InputStream nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::m_stream

Definition at line 555 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

storage_type nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::m_word

Definition at line 557 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::m_word_index

Definition at line 558 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::m_word_offset

Definition at line 559 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::SYMBOL_COUNT = 1u << SYMBOL_SIZE

static

Definition at line 423 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::SYMBOL_MASK = SYMBOL_COUNT - 1u

static

Definition at line 424 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::SYMBOL_SIZE = SYMBOL_SIZE_T

static

Definition at line 422 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::SYMBOLS_PER_WORD = (8u * WORD_SIZE) / SYMBOL_SIZE

static

Definition at line 433 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::VECTOR_WIDTH = SYMBOLS_PER_WORD

static

Definition at line 434 of file packedstream.h.

template<typename InputStream, typename Symbol, uint32 SYMBOL_SIZE_T, bool BIG_ENDIAN_T, typename IndexType>

const uint32 nvbio::ForwardPackedStream< InputStream, Symbol, SYMBOL_SIZE_T, BIG_ENDIAN_T, IndexType >::WORD_SIZE = uint32( sizeof(storage_type) )

static

Definition at line 432 of file packedstream.h.

---

The documentation for this struct was generated from the following files:

• E:/git/nvbio/nvbio/basic/packedstream.h
• E:/git/nvbio/nvbio/basic/packedstream_inl.h